Download Alignment
(Note: includes all positions in family; we filtered this alignment to remove sites that had > 75% gaps before running GREMLIN. )

Length:

124

Sequences:

626

Seq/Len:

5.05

HH_delta:

0.651 (20Jul13)

GREMLIN Results:
Residue pairs sorted by strength in covariance:Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] gremlin predictions, sequence seperation > 3. The i and j are positions as given in the consensus sequence. Show Scaled Distribution

i

j

Raw Score

Scaled Score

40_C

121_C

0.52847

4.556

48_Y

123_R

0.40227

3.468

13_M

48_Y

0.31368

2.704

50_D

123_R

0.25244

2.176

59_L

88_S

0.24377

2.102

43_L

121_C

0.23857

2.057

40_C

44_N

0.23768

2.049

13_M

123_R

0.23677

2.041

17_C

26_G

0.23184

1.999

17_C

79_P

0.22177

1.912

91_E

113_K

0.21924

1.890

52_R

58_E

0.21027

1.813

4_T

16_R

0.20867

1.799

73_I

120_R

0.20663

1.782

40_C

43_L

0.19711

1.699

98_A

113_K

0.19348

1.668

53_L

119_V

0.1826

1.574

4_T

46_G

0.17356

1.496

37_I

55_T

0.16772

1.446

87_W

98_A

0.16761

1.445

55_T

89_S

0.16194

1.396

81_T

103_F

0.15583

1.344

15_Q

120_R

0.15539

1.340

73_I

103_F

0.15306

1.320

15_Q

39_Y

0.15045

1.297

33_W

98_A

0.14999

1.293

81_T

120_R

0.14927

1.287

10_T

61_S

0.14912

1.286

64_D

67_C

0.1479

1.275

39_Y

43_L

0.14445

1.245

6_T

13_M

0.14333

1.236

5_V

16_R

0.14174

1.222

57_E

60_Q

0.1414

1.219

12_L

122_V

0.14107

1.216

52_R

55_T

0.14047

1.211

73_I

77_F

0.13961

1.204

3_G

16_R

0.13895

1.198

33_W

55_T

0.13452

1.160

91_E

98_A

0.13424

1.157

3_G

6_T

0.13309

1.147

40_C

46_G

0.12973

1.118

38_A

42_N

0.12973

1.118

36_A

41_N

0.12878

1.110

88_S

101_V

0.12827

1.106

36_A

46_G

0.12759

1.100

103_F

120_R

0.12638

1.090

85_W

99_W

0.12434

1.072

33_W

36_A

0.12397

1.069

4_T

17_C

0.12324

1.063

74_D

77_F

0.12266

1.058

9_K

77_F

0.12092

1.043

7_D

12_L

0.12065

1.040

15_Q

45_L

0.12029

1.037

47_G

50_D

0.11747

1.013

73_I

81_T

0.11698

1.009

55_T

61_S

0.11541

0.995

54_P

86_Y

0.11452

0.987

86_Y

103_F

0.11274

0.972

17_C

28_P

0.11125

0.959

82_D

86_Y

0.11089

0.956

56_I

88_S

0.11009

0.949

100_Y

105_N

0.10968

0.946

32_N

35_D

0.10839

0.935

13_M

50_D

0.10784

0.930

17_C

121_C

0.10716

0.924

80_N

83_S

0.10713

0.924

36_A

53_L

0.10612

0.915

63_Y

106_G

0.10611

0.915

52_R

122_V

0.10586

0.913

79_P

120_R

0.10566

0.911

4_T

13_M

0.10551

0.910

33_W

37_I

0.10355

0.893

90_T

99_W

0.10294

0.888

17_C

67_C

0.10257

0.884

27_S

31_M

0.10182

0.878

63_Y

101_V

0.10069

0.868

92_N

95_N

0.10021

0.864

56_I

105_N

0.09953

0.858

30_Y

66_S

0.09859

0.850

17_C

120_R

0.09774

0.843

26_G

120_R

0.09753

0.841

102_D

105_N

0.09671

0.834

73_I

79_P

0.09636

0.831

16_R

77_F

0.09625

0.830

112_S

115_D

0.09571

0.825

109_G

115_D

0.09561

0.824

39_Y

121_C

0.09504

0.819

66_S

82_D

0.09474

0.817

36_A

87_W

0.09309

0.803

17_C

31_M

0.09272

0.799

64_D

74_D

0.09266

0.799

15_Q

121_C

0.09256

0.798

36_A

40_C

0.09174

0.791

5_V

11_G

0.09159

0.790

34_D

38_A

0.09146

0.789

17_C

81_T

0.09127

0.787

67_C

71_A

0.08951

0.772

85_W

109_G

0.08939

0.771

96_S

114_S

0.08931

0.770

3_G

46_G

0.08881

0.766

59_L

86_Y

0.0888

0.766

100_Y

110_T

0.08851

0.763

57_E

71_A

0.08832

0.761

86_Y

101_V

0.08779

0.757

57_E

111_S

0.08777

0.757

26_G

62_L

0.08761

0.755

82_D

114_S

0.08695

0.750

107_N

112_S

0.0868

0.748

93_S

99_W

0.08669

0.747

88_S

108_V

0.08644

0.745

110_T

115_D

0.08598

0.741

41_N

46_G

0.08456

0.729

99_W

109_G

0.08419

0.726

15_Q

43_L

0.08351

0.720

56_I

85_W

0.08329

0.718

60_Q

108_V

0.08291

0.715

64_D

86_Y

0.08257

0.712

93_S

96_S

0.08223

0.709

61_S

107_N

0.0822

0.709

90_T

123_R

0.08203

0.707

69_N

85_W

0.08201

0.707

63_Y

78_F

0.08199

0.707

37_I

71_A

0.08188

0.706

3_G

15_Q

0.08175

0.705

32_N

45_L

0.08128

0.701

38_A

41_N

0.08116

0.700

8_N

15_Q

0.08089

0.697

7_D

14_W

0.08075

0.696

56_I

110_T

0.08064

0.695

25_T

100_Y

0.08057

0.695

96_S

107_N

0.07986

0.689

70_P

106_G

0.07947

0.685

87_W

99_W

0.07946

0.685

100_Y

117_Y

0.0793

0.684

34_D

97_N

0.07925

0.683

9_K

57_E

0.07921

0.683

56_I

83_S

0.07909

0.682

92_N

102_D

0.07886

0.680

3_G

36_A

0.07874

0.679

88_S

115_D

0.07852

0.677

101_V

108_V

0.07845

0.676

5_V

9_K

0.07818

0.674

17_C

36_A

0.07801

0.673

73_I

76_S

0.07795

0.672

49_T

57_E

0.07794

0.672

63_Y

70_P

0.07752

0.668

56_I

90_T

0.0773

0.666

4_T

15_Q

0.07718

0.665

92_N

110_T

0.07715

0.665

111_S

115_D

0.0771

0.665

74_D

79_P

0.07707

0.664

4_T

31_M

0.07696

0.664

94_S

102_D

0.07696

0.664

31_M

46_G

0.07682

0.662

16_R

64_D

0.07624

0.657

56_I

61_S

0.07621

0.657

31_M

36_A

0.07599

0.655

62_L

103_F

0.07567

0.652

94_S

117_Y

0.07563

0.652

15_Q

31_M

0.07561

0.652

31_M

39_Y

0.07554

0.651

33_W

111_S

0.07534

0.650

12_L

61_S

0.07526

0.649

85_W

108_V

0.07511

0.648

8_N

41_N

0.07479

0.645

69_N

95_N

0.07472

0.644

76_S

120_R

0.07469

0.644

40_C

48_Y

0.07468

0.644

63_Y

91_E

0.0744

0.641

25_T

84_S

0.07436

0.641

Legend: The value of the raw score is the function of the learning procedure, L2 normalization and APC (entropic) correction. These are to be used for relative ranking only.

HHsearch Results:
Top (length/2) GREMLIN results overlayed on top 10 PDB hits: Legend: The grey circles underneath are pdb residue contacts (min distance < 5 Angstroms). The coloring of these circles is based on HHsearch results which uses the overall probability, per-site alignment prob and agreement of top hits weighted by HHsearch score (Note we only consider monomeric contacts, there might be homo-oligomeric contacts in the pdb that are not shown.)